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mmu_circTmem87a_509
Basic information of circular RNA
PanCircBase ID:
mmu_circTmem87a_509
mm39_Chr. Position ID:
chr2|120208373|120222706|-
Gene name:
Tmem87a
Transcript:
ENSMUST00000090042.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
10,9,8,7,6
Exon/intron offsets:
0,1698,2874,7881,14288
Genomic length:
14333
Exon/intron sizes in nt:
100,184,62,118,45
Flanking exon/introns:
chr2:120205993-120208373|chr2:120222706-120222795
Splice length:
509
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCTAAGGAGAATGCAACAAATGTTACCTTTACTGGAGACAAAATTGCAATGCATGAACCATTGCAGACTTGGCAAGATGCTCCATACATTTTTATCGTGCATGTTGGCATCTCGTCCTCAAAGGAATCACCAAAAGAAAATGCACTAAGTAACCTTTTTACCATGACTGTTGAAGTAAAGGGTCCCTATGAATACCTTACTCTTGAAGACTACCCACTGATGATTTTTTTCATGGTGATGTGTATTGTGTACGTACTATTTGGTGTTCTCTGGCTGGCATGGTCTGCTTGCTACTGGAGAGATCTCCTGAGAATTCAATTTTGGATTGGTGCTGTCATCTTTCTTGGAATGTTTGAGAAAGCTGTGTTTTATGCAGAATTTCAGAATATCCGATACAAAGGAGAATCTGTCCAGAATGCCTTGGTCCTTGCAGAGCTGCTCTCAGCAGTAAAGCGCTCACTGGCTCGAACCCTGGTCATCATAGTCAGTCTGGGATACGGCATAGTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATGCCTTGGTCCTTGCAGA
59.89
AGCATCTTGCCAAGTCTGCA
60.25
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAATGCCTTGGTCCTTGCA
59.89
AGCATCTTGCCAAGTCTGCA
60.25
178
PCR template sequence:
TCCAGAATGCCTTGGTCCTTGCAGAGCTGCTCTCAGCAGTAAAGCGCTCACTGGCTCGAACCCTGGTCATCATAGTCAGTCTGGGATACGGCATAGTCAAGCTAAGGAGAATGCAACAAATGTTACCTTTACTGGAGACAAAATTGCAATGCATGAACCATTGCAGACTTGGCAAGATGCTCCATACATTTTTATCGTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-33-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACGGCATAGTCAAGCTAAGGAGAATG
siRNA sets
CTTAGCTTGACTATGCCGT, TCCTTAGCTTGACTATGCC, CATTCTCCTTAGCTTGACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTMEM87A_509_ORF_1
0.7347
-0.004890965
0.616354364
609
ORF sequence:
ATGCATGAACCATTGCAGACTTGGCAAGATGCTCCATACATTTTTATCGTGCATGTTGGCATCTCGTCCTCAAAGGAATCACCAAAAGAAAATGCACTAAGTAACCTTTTTACCATGACTGTTGAAGTAAAGGGTCCCTATGAATACCTTACTCTTGAAGACTACCCACTGATGATTTTTTTCATGGTGATGTGTATTGTGTACGTACTATTTGGTGTTCTCTGGCTGGCATGGTCTGCTTGCTACTGGAGAGATCTCCTGAGAATTCAATTTTGGATTGGTGCTGTCATCTTTCTTGGAATGTTTGAGAAAGCTGTGTTTTATGCAGAATTTCAGAATATCCGATACAAAGGAGAATCTGTCCAGAATGCCTTGGTCCTTGCAGAGCTGCTCTCAGCAGTAAAGCGCTCACTGGCTCGAACCCTGGTCATCATAGTCAGTCTGGGATACGGCATAGTCAAGCTAAGGAGAATGCAACAAATGTTACCTTTACTGGAGACAAAATTGCAATGCATGAACCATTGCAGACTTGGCAAGATGCTCCATACATTTTTATCGTGCATGTTGGCATCTCGTCCTCAAAGGAATCACCAAAAGAAAATGCACTAA
Peptide sequence:
MHEPLQTWQDAPYIFIVHVGISSSKESPKENALSNLFTMTVEVKGPYEYLTLEDYPLMIFFMVMCIVYVLFGVLWLAWSACYWRDLLRIQFWIGAVIFLGMFEKAVFYAEFQNIRYKGESVQNALVLAELLSAVKRSLARTLVIIVSLGYGIVKLRRMQQMLPLLETKLQCMNHCRLGKMLHTFLSCMLASRPQRNHQKKMH
IRESfinder result
IRESfinder score
0.681839823
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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